# List of top-scoring protein chains for T0275.t2k-w0.5 hidden Markov model. # HMM and HMM E-value scores computed by SAM (c) 1992-2001 Regents of the University of California, Santa Cruz # Sequence Alignment and Modeling Software System # http://www.cse.ucsc.edu/research/compbio/sam.html # ----------------- Citations (SAM, SAM-T99, HMMs) -------------------- # R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: # Extension and analysis of the basic method, CABIOS 12:95-107, 1996. # K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting # remote protein homologies, Bioinformatics 14(10):846-856, 1998. # A. Krogh et al., Hidden Markov models in computational biology: # Applications to protein modeling, JMB 235:1501-1531, Feb 1994. # # FSSP representative for each protein chain taken from FSSP: # ------------------Citations (FSSP) ----------------------------------- # L. Holm and C. Sander (1996) Mapping the protein universe. Science 273:595-602. # #SCOP domains found in each protein chain taken from SCOP: # ------------------Citations (SCOP) ----------------------------------- #Murzin A. G., Brenner S. E., Hubbard T., Chothia C. (1995). #SCOP: a structural classification of proteins database for the investigation of sequences and structures. #J. Mol. Biol. 247, 536-540. Sequence_ID Length Target_Evalue FSSP-rep SCOP_domain SCOP_suid 5S 5N 12S 6S 12S 10N 1mjhA 162 4.14e-23 1mjhA c.26.2.4 31639 1tq8A 163 6.12e-19 1jmvA 141 1.18e-16 c.26.2.4 66897 1q77A 138 5.06e-06 c.26.2.4 -6639 1g1yA 585 1.39e-03 1bvzA b.1.18.2 60210 b.71.1.1 60211 c.1.8.1 60212 1ji2A 585 4.06e-03 b.1.18.2 71672 b.71.1.1 71673 c.1.8.1 71674 1jf6A 585 4.27e-03 b.1.18.2 71650 b.71.1.1 71651 c.1.8.1 71652 1jf5A 585 5.59e-03 b.1.18.2 71644 b.71.1.1 71645 c.1.8.1 71646 1jl8A 585 5.83e-03 b.1.18.2 63163 b.71.1.1 63164 c.1.8.1 63165 1mrxA 99 6.62e-02 b.50.1.1 -4288 2ng1 293 9.17e-02 1ng1 a.24.13.1 16962 c.37.1.10 32273 1ffh 294 9.18e-02 1ng1 a.24.13.1 16960 c.37.1.10 32271 1rj9B 300 9.51e-02 a.24.13.1 -621 c.37.1.10 -7119 1ls1A 295 9.58e-02 a.24.13.1 78170 c.37.1.10 78171 1ng1 294 9.58e-02 1ng1 a.24.13.1 16961 c.37.1.10 32272 1o13A 136 9.60e-02 c.55.5.1 80762 1jpnA 296 9.67e-02 a.24.13.1 67039 c.37.1.10 67040 1o87A 297 9.72e-02 a.24.13.1 -619 c.37.1.10 -7117 1k2cA 99 9.73e-02 b.50.1.1 72008 1gnmA 99 9.88e-02 1hvc b.50.1.1 26672 1d4yA 99 1.07e-01 1hvc b.50.1.1 26549 1aaqA 99 1.14e-01 1fmb b.50.1.1 26688 1gnnA 99 1.25e-01 1fmb b.50.1.1 26676 1np7A 489 1.31e-01 a.99.1.1 80677 c.28.1.1 80678 2ffhA 425 1.40e-01 1ng1 a.24.13.1 16965 a.36.1.1 17122 c.37.1.10 32276 1s6sA 99 1.51e-01 1owlA 484 1.54e-01 a.99.1.1 -1296 c.28.1.1 -6646 1s65A 99 1.59e-01 1q9pA 95 2.26e-01 b.50.1.1 -4298 1ebkC 99 2.31e-01 1hvc b.50.1.1 26610 1ffiC 99 2.32e-01 1hvc b.50.1.1 59808 1sduA 99 2.32e-01 1a94A 99 2.34e-01 1fmb b.50.1.1 26599 1s6gA 99 2.39e-01 1k2bA 99 2.52e-01 b.50.1.1 72006 1lzqA 99 2.56e-01 b.50.1.1 84741 1fg6C 99 2.61e-01 1hvc b.50.1.1 59817 1d4sA 99 2.86e-01 1hvc b.50.1.1 26692 1bwbA 99 2.95e-01 1fmb b.50.1.1 26517 1bdqA 99 2.96e-01 1fmb b.50.1.1 26686 1merA 99 3.09e-01 1hvc b.50.1.1 26523 1hvsA 99 3.26e-01 1fmb b.50.1.1 26597 1bgvA 449 3.55e-01 1k89 c.2.1.7 30217 c.58.1.1 33865 1k89 449 3.57e-01 1k89 c.2.1.7 30218 c.58.1.1 33866 1g6lA 203 3.64e-01 1hvc b.50.1.1 26559 b.50.1.1 26560 1r46A 398 3.73e-01 b.71.1.1 -4658 c.1.8.1 -5286 1lv1A 203 3.77e-01 b.50.1.1 74273 b.50.1.1 74274 1aup 449 3.82e-01 1k89 c.2.1.7 30222 c.58.1.1 33870 1hvc 203 4.11e-01 1hvc b.50.1.1 26614 1bdlA 99 4.15e-01 1fmb b.50.1.1 26705 1bdrA 99 4.43e-01 1fmb b.50.1.1 26702 1metA 99 4.63e-01 1fmb b.50.1.1 26593 1iziA 99 4.66e-01 b.50.1.1 76990 1nh0A 99 4.70e-01 b.50.1.1 -4299 3tlhA 99 4.70e-01 1hvc b.50.1.1 26609 1tcxA 99 4.73e-01 1hvc b.50.1.1 26748 1hivA 99 4.85e-01 1fmb b.50.1.1 26555 1a9mA 99 4.93e-01 1hvc b.50.1.1 26642 1hvhA 99 5.11e-01 1hvc b.50.1.1 26585 1k1tA 99 5.27e-01 b.50.1.1 71995 1ru8A 232 5.35e-01 c.26.2.1 -6635 1odxA 99 5.49e-01 1fmb b.50.1.1 26577 1hefE 99 6.07e-01 1fmb b.50.1.1 26637 1axaA 99 8.15e-01 1hvc b.50.1.1 26633 1odyB 99 8.48e-01 1fmb b.50.1.1 26582 1eh9A 558 8.81e-01 1ehaA b.1.18.2 21858 b.71.1.1 27785 c.1.8.1 28772 1proA 99 8.95e-01 1fmb b.50.1.1 26509 1ehaA 558 9.05e-01 1ehaA b.1.18.2 21859 b.71.1.1 27786 c.1.8.1 28773 1odyA 99 9.56e-01 1hvc b.50.1.1 26581 1fb7A 99 1.04e+00 1hvc b.50.1.1 26683 1k1uA 99 1.31e+00 b.50.1.1 71997 1dazC 99 1.32e+00 1hvc b.50.1.1 26501 1khtA 192 1.38e+00 c.37.1.1 84401 1ecfA 504 1.42e+00 1ecfB c.61.1.1 34053 d.153.1.1 41820 1gefA 123 2.02e+00 1gefA c.52.1.18 60465 1o6bA 169 2.06e+00 c.26.1.3 -6613 1bez 310 2.17e+00 1b6g c.69.1.8 34666 1b6g 310 2.18e+00 1b6g c.69.1.8 34661 1ede 310 2.18e+00 1b6g c.69.1.8 34662 1hdeA 310 2.28e+00 1b6g c.69.1.8 34675 1k6vA 99 2.31e+00 b.50.1.1 68234 1o1zA 234 2.48e+00 c.1.18.3 86555 1i2pA 316 2.60e+00 1onrA c.1.10.1 61576 1i2nA 316 2.72e+00 1onrA c.1.10.1 61572 1nfgA 457 2.85e+00 b.92.1.3 85632 c.1.9.6 85633 1onrA 316 2.87e+00 1onrA c.1.10.1 29169 1jqbA 351 2.88e+00 b.35.1.2 77151 c.2.1.1 77152 1riqA 465 2.91e+00 unknown_sccs -1295 d.104.1.1 -10769 1ucwA 317 2.97e+00 1onrA c.1.10.1 29171 1mwmA 320 3.06e+00 c.55.1.1 79580 c.55.1.1 79581 1i2oA 316 3.32e+00 1onrA c.1.10.1 61574 1gkrA 458 3.48e+00 b.92.1.3 70251 c.1.9.6 70252 1i2rA 316 3.52e+00 1onrA c.1.10.1 61580 1nw8A 319 4.18e+00 c.66.1.11 86292 1qczA 169 4.34e+00 1qczA c.23.8.1 31276 1o4vA 183 4.36e+00 c.23.8.1 86628 1d7aA 161 4.57e+00 1qczA c.23.8.1 31277 1i2qA 316 4.80e+00 1onrA c.1.10.1 61578 1pqwA 198 4.92e+00 c.2.1.1 88278 1nmoA 247 4.99e+00 unknown_sccs -8746 1ujpA 271 5.35e+00 c.1.2.4 -5177 1qpkA 418 5.55e+00 1jdc b.71.1.1 27793 c.1.8.1 28780 1qi3A 429 5.61e+00 1jdc b.71.1.1 27794 c.1.8.1 28781 1qi4A 429 5.62e+00 1jdc b.71.1.1 27791 c.1.8.1 28778 1jdc 429 5.67e+00 1jdc b.71.1.1 27789 c.1.8.1 28776 2amg 418 5.68e+00 1jdc b.71.1.1 27796 c.1.8.1 28783 1gcyA 527 5.95e+00 1jdc b.71.1.1 27788 c.1.8.1 28775 1eg2A 319 6.12e+00 1eg2A c.66.1.11 34249 1qi5A 429 6.57e+00 1jdc b.71.1.1 27792 c.1.8.1 28779 1ujnA 348 6.61e+00 e.22.1.1 -11998 1b6jA 99 6.84e+00 1hvc b.50.1.1 26567 1lf1A 308 7.14e+00 c.1.8.3 73877 1mt7A 99 7.15e+00 b.50.1.1 79448 1mnmA 100 7.63e+00 1mnmA d.88.1.1 40232 1aj2 282 7.71e+00 1aj2 c.1.21.1 29665 1bmtA 246 7.76e+00 1bmtA a.46.1.1 17757 c.23.6.1 31235 1mtrA 99 8.05e+00 1fmb b.50.1.1 26507 1oi2A 366 8.42e+00 c.32.1.2 87039 d.79.2.2 87040 1kevA 351 8.43e+00 1pedA b.35.1.2 24749 c.2.1.1 29765 1eqnA 321 8.51e+00 1dd9A e.13.1.1 43256 1kzkA 99 8.75e+00 b.50.1.1 73371 1dd9A 338 8.76e+00 1dd9A e.13.1.1 43254 1aidA 99 8.96e+00 1fmb b.50.1.1 26591 1tvlA 454 9.24e+00 1vimA 200 9.49e+00 c.80.1.3 -8532 1h5vA 304 9.60e+00 c.1.8.3 70898 7a3hA 303 9.60e+00 7a3hA c.1.8.3 28817 1a3h 300 9.60e+00 7a3hA c.1.8.3 28819 1qi2A 305 9.60e+00 7a3hA c.1.8.3 28824 1bu6O 501 1.01e+01 1glcG c.55.1.4 33499 c.55.1.4 33500 1gljO 501 1.02e+01 1glcG c.55.1.4 33525 c.55.1.4 33526 1glaG 501 1.02e+01 1glcG c.55.1.4 33507 c.55.1.4 33508 1vh7A 265 1.06e+01 c.1.2.1 -5159 1kjgA 99 1.06e+01 b.50.1.1 72597 1mtbA 99 1.09e+01 b.50.1.1 79454 1tk9A 188 1.12e+01 1pfkA 320 1.12e+01 3pfk c.89.1.1 35575 1mvoA 136 1.12e+01 c.23.1.1 79513 2pfkC 320 1.13e+01 3pfk c.89.1.1 35579 1f3z 161 1.15e+01 1gpr b.84.3.1 28273 1itzA 675 1.16e+01 c.36.1.6 76798 c.36.1.10 76797 c.48.1.1 76799 1o60A 292 1.16e+01 c.1.10.4 -5549 1mjoA 104 1.19e+01 1cmbA unknown_sccs 17466 2f3gA 168 1.22e+01 1gpr b.84.3.1 28270 1thfD 253 1.24e+01 1thfD c.1.2.1 28535 1c6yA 99 1.26e+01 1hvc b.50.1.1 26670 1cmcA 104 1.28e+01 1cmbA unknown_sccs 17462 1r03A 182 1.28e+01 1tif 78 1.28e+01 1tif d.15.8.1 37836 1odfA 290 1.29e+01 c.37.1.6 -7045 1qupA 222 1.34e+01 1qupA b.1.8.1 22301 d.58.17.1 39352 1jk9B 249 1.35e+01 b.1.8.1 63150 d.58.17.1 63151 1ehyA 294 1.36e+01 1ehyA c.69.1.11 34693 1a1s 314 1.39e+01 1othA c.78.1.1 35258 c.78.1.1 35259 1pvvA 315 1.39e+01 c.78.1.1 -8495 c.78.1.1 -8496 1nexB 464 1.41e+01 a.158.1.1 80443 b.69.4.1 80444 1k7yA 577 1.44e+01 a.46.1.1 68272 c.23.6.1 68273 d.173.1.1 68274 1l3iA 192 1.47e+01 c.66.1.22 77676 1m6iA 493 1.47e+01 c.3.1.5 74533 c.3.1.5 74534 d.87.1.1 74535 1peeA 180 1.49e+01 2a0b 125 1.55e+01 2a0b a.24.10.1 16630 1gv4A 528 1.61e+01 c.3.1.5 70589 c.3.1.5 70590 d.87.1.1 70591 1h3fA 432 1.67e+01 c.26.1.1 76631 d.66.1.4 76632 1xnaA 183 1.69e+01 1xnaA b.18.1.8 23773 1km6A 247 1.70e+01 c.1.2.3 72742 1eu8A 409 1.73e+01 1eu8A c.94.1.1 59502 1efvB 255 1.77e+01 1efvB c.26.2.3 31634 1dpe 507 1.83e+01 1dpe c.94.1.1 35799 1f05A 337 1.83e+01 1onrA c.1.10.1 29173 1dppA 507 1.88e+01 1dpe c.94.1.1 35800 1oeyJ 107 1.90e+01 d.15.2.2 -9168 1mtoA 319 1.96e+01 c.89.1.1 79458 1qzuA 206 1.98e+01 c.34.1.1 -6804 1k1xA 659 1.99e+01 a.8.3.2 84279 b.30.5.8 84280 c.6.2.2 84281 1ulzA 451 2.03e+01 b.84.2.1 -5015 c.30.1.1 -6714 d.142.1.2 -11235 6pfkA 319 2.04e+01 3pfk c.89.1.1 35583 1lbcA 263 2.05e+01 c.94.1.1 73805 1ktbA 405 2.08e+01 b.71.1.1 72960 c.1.8.1 72961 1gpwA 253 2.08e+01 c.1.2.1 65460 1o0xA 262 2.10e+01 d.127.1.1 80755 1cfzA 162 2.10e+01 1cfzA c.56.1.1 33754 1nar 290 2.12e+01 1nar c.1.8.5 28988 1b1a 137 2.15e+01 1be1 c.23.6.1 31242 1ohvA 472 2.16e+01 c.67.1.4 -8181 1klzA 247 2.17e+01 c.1.2.3 72731 1be1 137 2.18e+01 1be1 c.23.6.1 31237 1km3A 247 2.19e+01 c.1.2.3 72739 1od6A 160 2.20e+01 c.26.1.3 86836 1vlbA 907 2.25e+01 1su8A 636 2.30e+01 e.26.1.2 -12015 1phwA 284 2.32e+01 1g7uA 284 2.32e+01 1d9eA c.1.10.4 60334 1inlA 296 2.32e+01 c.66.1.17 66220 1nqfA 594 2.33e+01 f.4.3.3 86028 1r89A 437 2.36e+01 unknown_sccs -1147 unknown_sccs -9801 unknown_sccs -10061 1irxA 523 2.36e+01 a.97.1.2 71378 c.26.1.1 71379 1q57A 503 2.37e+01 c.37.1.11 -7131 e.13.1.2 -11987 1uc8A 280 2.39e+01 unknown_sccs -6718 unknown_sccs -11230 8acn 754 2.40e+01 1amj c.8.2.1 30724 c.83.1.1 35400 1b74A 254 2.40e+01 1b74A c.78.2.1 35264 c.78.2.1 35265 1km0A 247 2.42e+01 c.1.2.3 72732 1losA 224 2.43e+01 c.1.2.3 74157 1nqeA 594 2.44e+01 f.4.3.3 86027 1nis 754 2.44e+01 1amj c.8.2.1 30730 c.83.1.1 35406 1klyA 247 2.46e+01 c.1.2.3 72730 1ccwA 137 2.47e+01 1be1 c.23.6.1 31238 1p1wA 263 2.51e+01 c.94.1.1 87713 1iv0A 98 2.52e+01 unknown_sccs -7667 1vhiA 142 2.58e+01 1b3tA d.58.8.1 39230 3tgl 269 2.60e+01 3tgl c.69.1.17 34733 1km4A 247 2.62e+01 c.1.2.3 72740 1fs0G 230 2.63e+01 1fs0G c.49.2.1 59999 1rvv1 154 2.63e+01 1rvv1 1lucA 355 2.64e+01 1lucA c.1.16.1 29547 1i58A 189 2.65e+01 1b3qA d.122.1.3 61773 1i5dA 191 2.67e+01 1b3qA d.122.1.3 61783 1p1oA 263 2.70e+01 c.94.1.1 87699 1uc9A 280 2.73e+01 unknown_sccs -6720 unknown_sccs -11232 1loqA 228 2.77e+01 c.1.2.3 74155 1lp6A 229 2.78e+01 c.1.2.3 74171 1dv7A 227 2.78e+01 1dvjA c.1.2.3 28550 7acn 754 2.82e+01 1amj c.8.2.1 30717 c.83.1.1 35393 1b0mA 753 2.83e+01 1amj c.8.2.1 30722 c.83.1.1 35398 1c96A 753 2.85e+01 1amj c.8.2.1 30727 c.83.1.1 35403 1c97A 753 2.88e+01 1amj c.8.2.1 30731 c.83.1.1 35407 1b0jA 754 2.89e+01 1amj c.8.2.1 30719 c.83.1.1 35395 1km2A 247 2.91e+01 c.1.2.3 72738 1pm1X 180 2.93e+01 1p99A 295 2.93e+01 c.94.1.1 -8697 1dvjA 246 2.93e+01 1dvjA c.1.2.3 28546 1m5dA 263 3.02e+01 c.94.1.1 78641 1nirA 543 3.03e+01 1qksA a.3.1.2 15939 b.70.2.1 27698 1km1A 247 3.03e+01 c.1.2.3 72736 1hzuA 543 3.03e+01 a.3.1.2 61460 b.70.2.1 61461 1hzvA 543 3.04e+01 a.3.1.2 61462 b.70.2.1 61463 1ftkA 279 3.06e+01 1gr2A c.94.1.1 35819 1gpmA 525 3.07e+01 1gpmA c.23.16.1 31405 c.26.2.1 31608 d.52.2.1 38826 1uby 367 3.12e+01 1uby a.128.1.1 19435 1ngvA 534 3.13e+01 c.111.1.2 85698 1k3rA 268 3.14e+01 b.40.4.10 72018 c.116.1.2 72019 1t10A 605 3.16e+01 1nrzA 164 3.17e+01 c.38.1.1 86131 1r4mA 529 3.18e+01 c.111.1.2 -8276 1umdA 367 3.19e+01 c.36.1.11 -6969 1mioB 458 3.20e+01 1qguB c.92.2.3 35602 1zrn 232 3.21e+01 1qq5A c.108.1.1 43323 1egzA 291 3.25e+01 7a3hA c.1.8.3 28828 1km5A 247 3.34e+01 c.1.2.3 72741 1d3uA 181 3.35e+01 1ytbA d.129.1.1 41290 d.129.1.1 41291 1umnA 165 3.40e+01 a.25.1.1 -656 1lb8A 263 3.45e+01 c.94.1.1 73800 1b3tA 147 3.46e+01 1b3tA d.58.8.1 39228 1aisA 182 3.46e+01 1ytbA d.129.1.1 41288 d.129.1.1 41289 1pjaA 302 3.49e+01 c.69.1.13 -8348 1mqdA 261 3.54e+01 c.94.1.1 85049 1b3qA 379 3.60e+01 1b3qA a.30.2.1 16993 b.40.7.1 25454 d.122.1.3 41112 1b8gA 429 3.60e+01 1b8gA c.67.1.4 34499 1n62B 809 3.64e+01 d.41.1.1 80092 d.133.1.1 80093 1dv8A 128 3.65e+01 1ixxB d.169.1.1 42352 1mqhA 263 3.67e+01 c.94.1.1 -8680 1ntoA 347 3.69e+01 b.35.1.2 -3669 c.2.1.1 -5693 1mqiA 263 3.69e+01 c.94.1.1 -8681 1m7yA 435 3.71e+01 c.67.1.4 78761 1qopB 396 3.80e+01 2tysB c.79.1.1 35270 1kfeB 394 3.80e+01 c.79.1.1 77374 1kfcB 397 3.81e+01 c.79.1.1 77372 1ubsB 397 3.82e+01 2tysB c.79.1.1 35273 2tysB 397 3.82e+01 2tysB c.79.1.1 35272 1ujsA 88 3.83e+01 a.14.1.1 -463 1beuB 397 3.84e+01 2tysB c.79.1.1 35274 1ttqB 397 3.84e+01 2tysB c.79.1.1 35268 1a50B 396 3.84e+01 2tysB c.79.1.1 35280 1k8yB 396 3.88e+01 c.79.1.1 72184 1qoqB 396 3.90e+01 2tysB c.79.1.1 35271 1o51A 114 3.90e+01 d.58.5.4 -10003 1pczA 191 3.97e+01 1ytbA d.129.1.1 41292 d.129.1.1 41293